Hello,
I received my raw NextGen sequencing files and am following a lab mate's protocol based on Galaxy. I created my account, then under "Get Data", I uploaded all FASTQ files, specifying type as "fastqsanger" and genome as hp38. For each individual sample, I merged multiple files representing 1 lane into 1 FASTQ file using "Text Manipulation" >Concatenate datasets tail-to-head. My data how looks like the below example. When I tried to proceed to the next step, which prompts to remove possible new/empty lines created between files by using "Filter and Sort" > "that: NOT Matching" and "the pattern: ^$", I couldn't see my merges files in the drop-down box, and am now not sure how to proceed. Any help would be greatly appreciated!
Best,
Katja